HsaINT0072522 @ hg19
Intron Retention
Gene
ENSG00000176884 | GRIN1
Description
glutamate receptor, ionotropic, N-methyl D-aspartate 1 [Source:HGNC Symbol;Acc:4584]
Coordinates
chr9:140051121-140051489:+
Coord C1 exon
chr9:140051121-140051242
Coord A exon
chr9:140051243-140051314
Coord C2 exon
chr9:140051315-140051489
Length
72 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGT
5' ss Score
11.45
3' ss Seq
TGAGTCGCATGCTCGCCTAGGCA
3' ss Score
4.71
Exon sequences
Seq C1 exon
CGAGGACGATGCTGCCACTGTATACCGCGCAGCCGCGATGCTGAACATGACGGGCTCCGGGTACGTGTGGCTGGTCGGCGAGCGCGAGATCTCGGGGAACGCCCTGCGCTACGCCCCAGACG
Seq A exon
GTGAGTGCTGGGCCTTGGCGGGGTCCCCGAACGGGGAGGACCCCACGGGCTCTGAGTCGCATGCTCGCCTAG
Seq C2 exon
GCATCCTCGGGCTGCAGCTCATCAACGGCAAGAACGAGTCGGCCCACATCAGCGACGCCGTGGGCGTGGTGGCCCAGGCCGTGCACGAGCTCCTCGAGAAGGAGAACATCACCGACCCGCCGCGGGGCTGCGTGGGCAACACCAACATCTGGAAGACCGGGCCGCTCTTCAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000176884-GRIN1:NM_007327:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.068
Domain overlap (PFAM):
C1:
PF0109423=ANF_receptor=FE(12.8=100)
A:
NA
C2:
PF0109423=ANF_receptor=FE(18.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGACGATGCTGCCACTGTAT
R:
GATGTGGGCCGACTCGTTCTT
Band lengths:
170-242
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)